# of processors

From: Neema Salimi (nsalimi9_at_itsa.ucsf.edu)
Date: Mon Mar 29 2004 - 13:02:30 CST

('binary' encoding is not supported, stored as-is) Is there any reason that NAMD would perform poorly with a non power-of-2 # of
processors? My tests on my 35K atom system on our Linux cluster show
these timings
(average of 3 simulations, using the final benchmark timings from each):

1: 2.16 sec/step
2: 1.13 sec/step
4: 0.581 sec/step
8: 0.301 sec/step
12: 0.373 sec/step
16: 0.183 sec/step

Thanks.

Neema Salimi
nsalimi9_at_itsa.ucsf.edu
Graduate Student - Agard Laboratory
Program in Biophysics
University of California, San Francisco

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